project_immunity: Project immunity from a baseline

In sbfnk/epimixr: Epidemiological analysis using social mixing matrices

Project immunity from a baseline

Description

Project immunity from a baseline via vaccination coverage rates

Usage

project_immunity(
  baseline_immunity,
  baseline_year,
  year,
  coverage,
  schedule,
  maternal_immunity,
  efficacy
)

Arguments

baseline_immunity	baseline immunity, as a named vector; the names correspond to lower limits of the age groups, and the vector itself to the corresponding levels of immunity.
baseline_year	year at which baseline immunity is taken (corresponding to a column in the coverage argument)
year	year to project to
coverage	coverage with multiple vaccine doses, given as a matrix in which each row is a dose and each (named) column a year
schedule	the ages at which vaccines are given (in years).
maternal_immunity	the proportion maternally immune.
efficacy	vaccine efficacy.

Value

a data frame of immunity levels by age group (as in baseline_immunity).

Author(s)

Sebastian Funk <[e-mail]>

Examples

baseline_immunity <- c(`2` = 0.85, `5` = 0.9, `10` = 0.95)
coverage <- matrix(rep(0.9, 10), nrow = 2)
colnames(coverage) <- as.character(seq(2015, 2019))
project_immunity(
  baseline_immunity, 2018, 2019, coverage = coverage,
  schedule = c(1, 2), 0.5, 0.95
)

sbfnk/epimixr documentation built on Nov. 3, 2024, 10:20 p.m.